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  • Jan 31 2019 22:37

    bebatut on gh-pages

    Update on: Thu Jan 31 22:36:58 … (compare)

  • Jan 31 2019 22:00

    erasche on master

    Reports fix. Clear up issue in Galaxy docker… More reports fixes... and 1 more (compare)

  • Jan 31 2019 22:00
    erasche closed #1237
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    erasche commented #1237
  • Jan 31 2019 21:33
    jmchilton synchronize #1237
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    erasche labeled #1239
  • Jan 31 2019 21:01
    erasche opened #1239
  • Jan 31 2019 21:00
    natefoo opened #1238
  • Jan 31 2019 20:56
    jmchilton opened #1237
  • Jan 31 2019 20:17

    bebatut on gh-pages

    Update on: Thu Jan 31 20:17:17 … (compare)

  • Jan 31 2019 19:44

    erasche on master

    fix typos Merge pull request #1236 from g… (compare)

  • Jan 31 2019 19:44
    erasche closed #1236
  • Jan 31 2019 19:44
    martenson opened #1236
  • Jan 31 2019 19:44

    martenson on martenson-patch-2

    fix typos (compare)

  • Jan 31 2019 19:23

    bebatut on gh-pages

    Update on: Thu Jan 31 19:23:39 … (compare)

  • Jan 31 2019 19:06

    Slugger70 on master

    import some notes fix username and 1 more (compare)

  • Jan 31 2019 19:06
    Slugger70 closed #1234
  • Jan 31 2019 19:04
    erasche review_requested #1234
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    erasche synchronize #1234
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    erasche unlabeled #1234
Helena Rasche
@hexylena:matrix.org
[m]
if you write the galaxy portion, we can merge the PR that makes it full text search :P
Yvan Le Bras
@yvanlebras
Like this idea because allow to have something directly linked to the tool
sorry, I am not aware of the full-text PR... What the prupose of this one ?
Helena Rasche
@hexylena:matrix.org
[m]
the current search just searches tutorial metadata
galaxyproject/training-material#2458 there's a PR for making the search truly full-text search, which would help it find tools
I'll make a note to test specifically tool names there
Yvan Le Bras
@yvanlebras
ok, Yes, very usefull improvement to hve truly full-text search ! THANK YOU !
And so, what is the point around "if you write the Galaxy portion" ? You mean, writing the Galaxy portion of the webhook ? Or something else ? (Sorry surely my franglish and quarter of neuron ;) )
Helena Rasche
@hexylena:matrix.org
[m]
yea, sure, a webhook that creates the link <a href="gtn/tool-search/?q=tool-name">Click here to find help on the GTN</a>
we should maybe hear from everyone though what would be most useful, not sure if this matches up with the idea of Matthias and Coline?
Nicola Soranzo
@nsoranzo
Does it need to be a webhook? Or we can just add this to the tool form.
Yvan Le Bras
@yvanlebras
YEs, it is really inline ! And yes also, will be good to have feedback on this idea and notably to select the "specificity" of this search (I mean tool name vs exact version of a tool vs others )
Nicola Soranzo
@nsoranzo
Although many (most?) tools won't have any associated training material.
Yvan Le Bras
@yvanlebras
Nicola, we were thinking adding it to the tool form... but the webhook iea is really nice I think. Saying that, maybe it will be good to have feedback on it
True Nicola (for now ;) )
a good point to propose to put it on the tool form...
Bérénice Batut
@bebatut:matrix.org
[m]
In the xml itself or in the Galaxy code directly?
Yvan Le Bras
@yvanlebras
I was thinking the xml side
maybe the citations part
Bérénice Batut
@bebatut:matrix.org
[m]
I am afraid in the xml, it would be out of date quickly
Yvan Le Bras
@yvanlebras
the xml or the tuto ?
Helena Rasche
@hexylena:matrix.org
[m]
me too, it'd be a syncing nightmare
Bérénice Batut
@bebatut:matrix.org
[m]
the XML
Yvan Le Bras
@yvanlebras
you mean due to evolution of tools ?
Bérénice Batut
@bebatut:matrix.org
[m]
and tutorials
Helena Rasche
@hexylena:matrix.org
[m]
any new tutorial wouldn't be included
Yvan Le Bras
@yvanlebras
but the tool, even if not in the same version can be related to the same tutorial... but maybe not..
Nicola Soranzo
@nsoranzo
I meant that Galaxy adds it automatically to the tool form, not the XML
2 replies
Yvan Le Bras
@yvanlebras
new tuto can be included if there is a manner to automatically update related tools
Helena Rasche
@hexylena:matrix.org
[m]
yeah, with Nicola Soranzo here, that's the easiest option, but someone needs to write the JS
Yvan Le Bras
@yvanlebras
ok, understand
JS = JungleSpeed isn't it ? ;)
Wendi Bacon
@nomadscientist
Are there any restrictions to people in certain countries with blocked sites (like China?) from using Galaxy? <— question came up today in course
bgruening
@bgruening:matrix.org
[m]
Not from our side.
But we don't know if other countries are blocking us.
chaikhi-soumaya
@chaikhi-soumaya
hello, can anyone tell me how can I work with a reference genome that doesn't exist in the choices given.
Björn Grüning
@bgruening
@chaikhi-soumaya in theory we can install those genomes on request, if its a common one with a standard sequence in this community
but you can always upload the FASTA file of the reference and feed this into your tools
e.g. the mapping tools
chaikhi-soumaya
@chaikhi-soumaya
@bgruening thank you
Björn Grüning
@bgruening
your welcome!
komaleashwarlal
@komaleashwarlal:matrix.org
[m]
Iam not able to find trinity statistics and generate gene to transcript map tool can anyone help me or suggest an alternate
Jayda
@Jaydabaeduh_twitter
Hi! I am doing a project on the Galaxy database, specifically the NCBI Blast + feature and have been running around in circles. Starting with BLASTx, how do I go about getting a nucleotide sequence and then using/inputting a database.
Giuseppe Profiti
@profgiuseppe
Hello, is there any tutorial, guide or documentation about using the ansible role for installing Galaxy on a shared NFS filesystem, so it could be used in a cluster? I would rather not double check all the "become" to see what should be done by the (shared) galaxy user and what needs to be performed by root (thus the issues with NFS). Thanks!
3 replies
Wendi Bacon
@nomadscientist
GCC conference question for registration - you register for training AND conference, right?
not one or the other?
Saskia Hiltemann
@shiltemann
correct, assuming you want to attend both of course
Aditya Raj
@adityarajworld_twitter
I am unable filter out lower-quality reads from our FASTQ file. I am unable to find Filter by quality option in tool box.
if you're on a different server, change the "usegalaxy.eu" part, and it should hopefully still work